Title: Easy Use of 'GADM' Shapefiles
Description: Manipulate, assemble, export <http://www.gadm.org> shapefiles. Create choropleth, heatmaps, dots plot, proportional dots and more.
Author: Jean Pierre Decorps [aut, cre],
Morgane Vallee [ctb]
Maintainer: Jean Pierre Decorps <jp.decorps@epiconcept.fr>
Diff between GADMTools versions 2.1-1 dated 2017-04-29 and 2.2-1 dated 2018-06-04
DESCRIPTION | 12 ++++++------ MD5 | 17 +++++++++-------- R/01_GADMTools.R | 9 ++++++--- README.md | 5 ++++- build/vignette.rds |binary inst/doc/Using_GADMTools.Rmd | 4 ++-- inst/doc/Using_GADMTools.pdf |binary man/GADMTools-package.Rd | 8 ++++---- vignettes/FRA_adm0.rds |only vignettes/Using_GADMTools.Rmd | 4 ++-- 10 files changed, 33 insertions(+), 26 deletions(-)
Title: The Grammar of Tables
Description: Provides an extensible formula system to quickly and easily create
production quality tables. The steps of the process are formula parser,
statistical content generation from data, to rendering. Each step of the process
is separate and user definable thus creating a set of building blocks for
highly extensible table generation. A user is not limited by any of the
choices of the package creator other than the formula grammar. For example,
one could chose to add a different S3 rendering function and output a format
not provided in the default package. Or possibly one would rather have Gini
coefficients for their statistical content. Routines to achieve New England
Journal of Medicine style, Lancet style and Hmisc::summaryM() statistics are
provided. The package contains rendering for HTML5, Rmarkdown and an indexing
format for use in tracing and tracking are provided.
Author: Shawn Garbett [aut, cre],
Thomas Stewart [ctb],
Jennifer Thompson [ctb],
Frank Harrell [ctb]
Maintainer: Shawn Garbett <Shawn.Garbett@vumc.org>
Diff between tangram versions 0.3.2 dated 2017-10-02 and 0.4 dated 2018-06-04
tangram-0.3.2/tangram/man/rmd.tangram.Rd |only tangram-0.4/tangram/DESCRIPTION | 24 - tangram-0.4/tangram/MD5 | 82 +++--- tangram-0.4/tangram/NAMESPACE | 36 ++ tangram-0.4/tangram/R/compile-cell.R | 44 ++- tangram-0.4/tangram/R/compile-operators.R | 89 +++++-- tangram-0.4/tangram/R/compile-post.R | 78 ++++++ tangram-0.4/tangram/R/compile.R | 89 ++++++- tangram-0.4/tangram/R/render-csv.R |only tangram-0.4/tangram/R/render-html5.R | 74 ++++-- tangram-0.4/tangram/R/render-index.R | 1 tangram-0.4/tangram/R/render-latex-map.R | 242 ++++++++++---------- tangram-0.4/tangram/R/render-latex.R | 154 ++++++++---- tangram-0.4/tangram/R/render-rmd.R | 142 +++++++---- tangram-0.4/tangram/R/render-rtf.R | 74 +++++- tangram-0.4/tangram/R/render-summary.R | 9 tangram-0.4/tangram/R/transform-hmisc.R | 265 +++++++++++++++++----- tangram-0.4/tangram/R/transform-proc-tab.R |only tangram-0.4/tangram/README.md | 1 tangram-0.4/tangram/build/vignette.rds |binary tangram-0.4/tangram/inst/doc/example.Rmd | 2 tangram-0.4/tangram/inst/doc/example.html | 60 ++-- tangram-0.4/tangram/inst/doc/fda-example.html | 50 ++-- tangram-0.4/tangram/inst/doc/single-style.html | 28 +- tangram-0.4/tangram/inst/doc/summary-example.html | 56 ++-- tangram-0.4/tangram/inst/extdata/css/lancet.css | 2 tangram-0.4/tangram/inst/extdata/css/nejm.css | 6 tangram-0.4/tangram/man/add_indent.Rd |only tangram-0.4/tangram/man/cbind.tangram.Rd |only tangram-0.4/tangram/man/cell.htest.Rd | 5 tangram-0.4/tangram/man/csv.Rd |only tangram-0.4/tangram/man/insert_row.Rd |only tangram-0.4/tangram/man/latex.Rd | 24 + tangram-0.4/tangram/man/nejm_style.Rd |only tangram-0.4/tangram/man/pipe.tangram.Rd |only tangram-0.4/tangram/man/plus-.tangram.Rd |only tangram-0.4/tangram/man/proc_tab.Rd |only tangram-0.4/tangram/man/rbind.tangram.Rd |only tangram-0.4/tangram/man/rmd.Rd | 45 +++ tangram-0.4/tangram/man/rtf.cell_chi2.Rd |only tangram-0.4/tangram/man/summarize_chisq.Rd | 8 tangram-0.4/tangram/man/summarize_kruskal_horz.Rd | 6 tangram-0.4/tangram/man/summarize_kruskal_vert.Rd | 6 tangram-0.4/tangram/man/summarize_nejm_horz.Rd |only tangram-0.4/tangram/man/summarize_spearman.Rd | 6 tangram-0.4/tangram/man/summary.Rd | 13 - tangram-0.4/tangram/man/tangram.Rd | 15 + tangram-0.4/tangram/tests/testthat/testLatexify.R | 9 tangram-0.4/tangram/vignettes/example.Rmd | 2 49 files changed, 1248 insertions(+), 499 deletions(-)
Title: Realized Relatedness Estimation and Simulation
Description: Functions for studying realized genetic relatedness between people. Users will be able to simulate inheritance patterns given pedigree structures, generate SNP marker data given inheritance patterns, and estimate realized relatedness between pairs of individuals using SNP marker data. See Wang (2017) <doi:10.1534/genetics.116.197004>. This work was supported by National Institutes of Health grants R37 GM-046255.
Author: Bowen Wang
Maintainer: Bowen Wang <bowenwang7@gmail.com>
Diff between rres versions 1.0 dated 2018-04-09 and 1.1 dated 2018-06-04
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- R/recode_ibd.R | 22 +++++++++++----------- R/score_ibd.R | 12 ++++++------ R/simulation.R | 10 +++++----- R/write_ibdhaplo.R | 2 +- man/fgl2ibd.Rd | 4 ++-- man/ibd.marker.Rd | 4 ++-- man/ibd.segment.Rd | 4 ++-- man/recode.ibd.Rd | 12 ++++++------ man/sim.recomb.Rd | 2 +- man/write.ibdhaplo.Rd | 2 +- 12 files changed, 51 insertions(+), 51 deletions(-)
Title: Keen and Reliable Interface Subroutines for Bioinformatic
Analysis
Description: Provides useful functions which are needed for bioinformatic analysis such as calculating linear principal components from numeric data and Single-nucleotide polymorphism (SNP) dataset, calculating fixation index (Fst) using Hudson method, creating scatter plots in 3 views, handling with PLINK binary file format, detecting rough structures and outliers using unsupervised clustering, and calculating matrix multiplication in the faster way for big data.
Author: Kridsadakorn Chaichoompu [aut, cre],
Kristel Van Steen [aut],
Fentaw Abegaz [aut],
Sissades Tongsima [aut],
Philip James Shaw [aut],
Anavaj Sakuntabhai [aut],
Luisa Pereira [aut]
Maintainer: Kridsadakorn Chaichoompu <kridsadakorn@biostatgen.org>
Diff between KRIS versions 1.0.3 dated 2018-05-07 and 1.1.1 dated 2018-06-04
DESCRIPTION | 11 +- MD5 | 33 +++--- NAMESPACE | 1 NEWS.md | 43 ++++++++ R/data.R | 2 R/for_parallel.R |only R/kris.R | 1 R/plot.3views.R | 8 + R/principal.component.R | 164 +++++++++++++++++++++++++++++++--- README.md | 16 ++- inst/CITATION | 4 man/KRIS-package.Rd | 3 man/cal.pc.linear.Rd | 5 - man/cal.pc.projection.Rd |only man/plot3views.Rd | 8 + man/replace.missing.Rd |only man/simsnp.Rd | 2 tests/testthat/test_calpcprojection.R |only tests/testthat/test_plot3views.R | 6 - tests/testthat/test_replacemissing.R |only 20 files changed, 260 insertions(+), 47 deletions(-)
Title: Generalized and Classical Blockmodeling of Valued Networks
Description: This is primarily meant as an implementation of generalized blockmodeling for valued networks.
In addition, measures of similarity or dissimilarity based on structural equivalence and
regular equivalence (REGE algorithms) can be computed and partitioned matrices can be plotted:
Žiberna (2007)<doi:10.1016/j.socnet.2006.04.002>, Žiberna (2008)<doi:10.1080/00222500701790207>,
Žiberna (2014)<doi:10.1016/j.socnet.2014.04.002>.
Author: Aleš Žiberna [aut, cre]
Maintainer: Aleš Žiberna <ales.ziberna@gmail.com>
Diff between blockmodeling versions 0.3.0 dated 2018-04-11 and 0.3.1 dated 2018-06-04
CHANGES | 13 ++++++- DESCRIPTION | 18 ++++++---- MD5 | 51 ++++++++++++++-------------- inst/CITATION | 13 ++++--- man/Pajek.Rd | 21 +++++------ man/REGE.Rd | 50 +++++++++++++-------------- man/blockmodeling-package.Rd | 35 ++++++++----------- man/clu.Rd | 23 ++++++------ man/critFunC.Rd | 73 ++++++++++++++++++++-------------------- man/find.m.Rd | 32 +++++++++-------- man/formatA.Rd | 6 +-- man/fun.by.blocks.Rd | 36 ++++++++++---------- man/genMatrixMult.Rd | 14 +++---- man/genRandomPar.Rd | 20 +++++------ man/gplot1.Rd | 26 +++++++------- man/ircNorm.Rd | 8 ++-- man/nkpartitions.Rd | 22 ++++++------ man/optRandomParC.Rd | 77 +++++++++++++++++++++---------------------- man/plot.mat.Rd | 74 +++++++++++++++++++++-------------------- man/rand.Rd | 10 ++--- man/recode.Rd | 6 +-- man/reorderImage.Rd | 11 ++---- man/sedist.Rd | 26 +++++++------- man/ss.Rd | 4 +- man/two2one.Rd | 22 ++++++------ src/blockmodelingC.c | 11 ------ src/init.c |only 27 files changed, 356 insertions(+), 346 deletions(-)
Title: Create Interactive Web Maps with the JavaScript 'Leaflet'
Library
Description: Create and customize interactive maps using the 'Leaflet'
JavaScript library and the 'htmlwidgets' package. These maps can be used
directly from the R console, from 'RStudio', in Shiny applications and R Markdown
documents.
Author: Joe Cheng [aut, cre],
Bhaskar Karambelkar [aut],
Yihui Xie [aut],
Hadley Wickham [ctb],
Kenton Russell [ctb],
Kent Johnson [ctb],
Barret Schloerke [ctb],
jQuery Foundation and contributors [ctb, cph] (jQuery library),
Vladimir Agafonkin [ctb, cph] (Leaflet library),
CloudMade [cph] (Leaflet library),
Leaflet contributors [ctb] (Leaflet library),
Leaflet Providers contributors [ctb, cph] (Leaflet Providers plugin),
Brandon Copeland [ctb, cph] (leaflet-measure plugin),
Joerg Dietrich [ctb, cph] (Leaflet.Terminator plugin),
Benjamin Becquet [ctb, cph] (Leaflet.MagnifyingGlass plugin),
Norkart AS [ctb, cph] (Leaflet.MiniMap plugin),
L. Voogdt [ctb, cph] (Leaflet.awesome-markers plugin),
Daniel Montague [ctb, cph] (Leaflet.EasyButton plugin),
Kartena AB [ctb, cph] (Proj4Leaflet plugin),
Robert Kajic [ctb, cph] (leaflet-locationfilter plugin),
Mapbox [ctb, cph] (leaflet-omnivore plugin),
Michael Bostock [ctb, cph] (topojson),
RStudio [cph]
Maintainer: Joe Cheng <joe@rstudio.com>
Diff between leaflet versions 2.0.0 dated 2018-04-20 and 2.0.1 dated 2018-06-04
DESCRIPTION | 6 +- MD5 | 19 ++++-- NAMESPACE | 2 NEWS | 16 +++++ R/leaflet.R | 41 ++++++++++++--- R/mapPane.R |only inst/htmlwidgets/leaflet.js | 31 +++++++++-- inst/htmlwidgets/lib/rstudio_leaflet/rstudio_leaflet.css | 5 + man/addMapPane.Rd |only man/leaflet.Rd | 5 + man/leafletSizingPolicy.Rd |only tests/testthat/test-normalize-2.R | 1 12 files changed, 100 insertions(+), 26 deletions(-)
Title: Getting Data from IPEADATA
Description: Access data from IPEA (Instituto de Pesquisa Economica Aplicada) hosted
at <http://www.ipeadata.gov.br>. It gets metadata and values for all series on
the website.
Author: Gustavo Coelho [aut, cre],
Lucas Mation [aut]
Maintainer: Gustavo Coelho <gustavo.coelho@ipea.gov.br>
Diff between ipeaData versions 0.0.1 dated 2018-05-11 and 0.0.2 dated 2018-06-04
DESCRIPTION | 6 +-- MD5 | 19 +++++---- NAMESPACE | 1 R/ipeaData.R | 41 ++++++++++++++++---- README.md | 59 +++++++++++++++++++++++++++++- man/format_data.Rd | 4 +- man/get_metadata.Rd | 3 + man/get_sources.Rd | 3 - man/ipeadata.Rd | 6 +-- man/search_serie.Rd |only tests/testthat/test_functions_ipea_data.R | 5 ++ 11 files changed, 118 insertions(+), 29 deletions(-)
Title: Centrality-Based Pathway Enrichment
Description: Use pathway topology information to assign weight to
pathway nodes.
Author: Zuguang Gu
Maintainer: Zuguang Gu <jokergoo@gmail.com>
Diff between CePa versions 0.5 dated 2012-09-11 and 0.6 dated 2018-06-04
CePa-0.5/CePa/R/cepa.all.parallel.R |only CePa-0.5/CePa/R/generate.pathway.R |only CePa-0.5/CePa/R/get.cepa.R |only CePa-0.5/CePa/R/label.R |only CePa-0.5/CePa/R/p.table.R |only CePa-0.5/CePa/R/pathway.nodes.R |only CePa-0.5/CePa/R/read.cls.R |only CePa-0.5/CePa/R/read.gct.R |only CePa-0.5/CePa/man/CePa-package.Rd |only CePa-0.5/CePa/man/PID.db.Rd |only CePa-0.5/CePa/man/cepa.Rd |only CePa-0.5/CePa/man/cepa.all.Rd |only CePa-0.5/CePa/man/cepa.all.parallel.Rd |only CePa-0.5/CePa/man/cepa.ora.Rd |only CePa-0.5/CePa/man/cepa.ora.all.Rd |only CePa-0.5/CePa/man/cepa.univariate.Rd |only CePa-0.5/CePa/man/cepa.univariate.all.Rd |only CePa-0.5/CePa/man/gene.list.Rd |only CePa-0.5/CePa/man/generate.pathway.Rd |only CePa-0.5/CePa/man/get.cepa.Rd |only CePa-0.5/CePa/man/p.table.Rd |only CePa-0.5/CePa/man/pathway.nodes.Rd |only CePa-0.5/CePa/man/plot.cepa.Rd |only CePa-0.5/CePa/man/plot.cepa.all.Rd |only CePa-0.5/CePa/man/plot.pathway.catalogue.Rd |only CePa-0.5/CePa/man/plotGraph.Rd |only CePa-0.5/CePa/man/plotNull.Rd |only CePa-0.5/CePa/man/print.cepa.Rd |only CePa-0.5/CePa/man/print.cepa.all.Rd |only CePa-0.5/CePa/man/print.pathway.catalogue.Rd |only CePa-0.5/CePa/man/radiality.Rd |only CePa-0.5/CePa/man/reach.Rd |only CePa-0.5/CePa/man/read.cls.Rd |only CePa-0.5/CePa/man/read.gct.Rd |only CePa-0.5/CePa/man/report.Rd |only CePa-0.5/CePa/man/sampleLabel.Rd |only CePa-0.5/CePa/man/set.pathway.catalogue.Rd |only CePa-0.5/CePa/man/spread.Rd |only CePa-0.6/CePa/CHANGES | 3 CePa-0.6/CePa/DESCRIPTION | 17 CePa-0.6/CePa/MD5 | 102 +-- CePa-0.6/CePa/NAMESPACE | 73 +- CePa-0.6/CePa/R/centrality.R | 98 +++ CePa-0.6/CePa/R/cepa.all.R | 405 ++++++++++----- CePa-0.6/CePa/R/data.R |only CePa-0.6/CePa/R/expression.R |only CePa-0.6/CePa/R/get_result.R |only CePa-0.6/CePa/R/ora_extension.R | 90 +++ CePa-0.6/CePa/R/overview.R |only CePa-0.6/CePa/R/pathway.R |only CePa-0.6/CePa/R/plot_print.R | 533 ++++++++++++++++---- CePa-0.6/CePa/R/report.R | 59 ++ CePa-0.6/CePa/R/univariate_extension.R | 119 ++++ CePa-0.6/CePa/build |only CePa-0.6/CePa/data/PID.db.rda |binary CePa-0.6/CePa/data/gene.list.rda |binary CePa-0.6/CePa/inst/doc/CePa.pdf |binary CePa-0.6/CePa/inst/doc/analysis-p53.pdf |binary CePa-0.6/CePa/inst/doc/parsing-PID-pathway-data.pdf |binary CePa-0.6/CePa/man/CePa-package.rd |only CePa-0.6/CePa/man/PID.db.rd |only CePa-0.6/CePa/man/cepa.all.parallel.rd |only CePa-0.6/CePa/man/cepa.all.rd |only CePa-0.6/CePa/man/cepa.ora.all.rd |only CePa-0.6/CePa/man/cepa.ora.rd |only CePa-0.6/CePa/man/cepa.rd |only CePa-0.6/CePa/man/cepa.univariate.all.rd |only CePa-0.6/CePa/man/cepa.univariate.rd |only CePa-0.6/CePa/man/gene.list.rd |only CePa-0.6/CePa/man/generate.pathway.rd |only CePa-0.6/CePa/man/get.cepa.rd |only CePa-0.6/CePa/man/p.table.rd |only CePa-0.6/CePa/man/pathway.nodes.rd |only CePa-0.6/CePa/man/plot.cepa.all.rd |only CePa-0.6/CePa/man/plot.cepa.rd |only CePa-0.6/CePa/man/plot.pathway.catalogue.rd |only CePa-0.6/CePa/man/plotGraph.rd |only CePa-0.6/CePa/man/plotNull.rd |only CePa-0.6/CePa/man/print.cepa.all.rd |only CePa-0.6/CePa/man/print.cepa.rd |only CePa-0.6/CePa/man/print.pathway.catalogue.rd |only CePa-0.6/CePa/man/radiality.rd |only CePa-0.6/CePa/man/reach.rd |only CePa-0.6/CePa/man/read.cls.rd |only CePa-0.6/CePa/man/read.gct.rd |only CePa-0.6/CePa/man/report.rd |only CePa-0.6/CePa/man/sampleLabel.rd |only CePa-0.6/CePa/man/set.pathway.catalogue.rd |only CePa-0.6/CePa/man/spread.rd |only 89 files changed, 1162 insertions(+), 337 deletions(-)
Title: Correlation and Regression Analyses for Randomized Response Data
Description: Univariate and multivariate methods to analyze randomized response
(RR) survey designs (e.g., Warner, S. L. (1965). Randomized response: A
survey technique for eliminating evasive answer bias. Journal of the
American Statistical Association, 60, 63–69, <doi:10.2307/2283137>).
Besides univariate estimates of true proportions, RR variables can be used
for correlations, as dependent variable in a logistic regression (with or
without random effects), or as predictors in a linear regression
(Heck, D. W., & Moshagen, M. (2018). RRreg: An R package for correlation and
regression analyses of randomized response data. Journal of Statistical
Software, 85(2), 1–29, <doi:10.18637/jss.v085.i02>). For simulations and
the estimation of statistical power, RR data can be generated according to
several models. The implemented methods also allow to test the link between
continuous covariates and dishonesty in cheating paradigms such as the
coin-toss or dice-roll task (Moshagen, M., & Hilbig, B. E. (2017).
The statistical analysis of cheating paradigms. Behavior Research Methods,
49, 724–732, <doi:10.3758/s13428-016-0729-x>).
Author: Daniel W. Heck [aut, cre],
Morten Moshagen [aut]
Maintainer: Daniel W. Heck <heck@uni-mannheim.de>
Diff between RRreg versions 0.6.7 dated 2018-04-04 and 0.6.8 dated 2018-06-04
DESCRIPTION | 32 +++++--- MD5 | 21 +++-- NEWS | 7 + R/RRmixed.R | 1 R/RRreg-package.R | 4 - build/vignette.rds |binary inst/CITATION | 29 ++++--- inst/doc/Heck_Moshagen_2018_JSS.pdf |only inst/doc/Heck_Moshagen_2018_JSS.pdf.asis |only inst/doc/RRreg.html | 120 +++++++++++++++--------------- man/RRmixed.Rd | 1 man/RRreg-package.Rd | 4 - vignettes/Heck_Moshagen_2018_JSS.pdf.asis |only 13 files changed, 123 insertions(+), 96 deletions(-)
Title: Methods for Graphical Models and Causal Inference
Description: Functions for causal structure
learning and causal inference using graphical models. The main algorithms
for causal structure learning are PC (for observational data without hidden
variables), FCI and RFCI (for observational data with hidden variables),
and GIES (for a mix of data from observational studies
(i.e. observational data) and data from experiments
involving interventions (i.e. interventional data) without hidden
variables). For causal inference the IDA algorithm, the Generalized
Backdoor Criterion (GBC), the Generalized Adjustment Criterion (GAC)
and some related functions are implemented. Functions for incorporating
background knowledge are provided.
Author: Markus Kalisch [aut, cre],
Alain Hauser [aut],
Martin Maechler [aut],
Diego Colombo [ctb],
Doris Entner [ctb],
Patrik Hoyer [ctb],
Antti Hyttinen [ctb],
Jonas Peters [ctb],
Nicoletta Andri [ctb],
Emilija Perkovic [ctb],
Preetam Nandy [ctb],
Philipp Ruetimann [ctb],
Daniel Stekhoven [ctb],
Manuel Schuerch [ctb],
Marco Eigenmann [ctb]
Maintainer: Markus Kalisch <kalisch@stat.math.ethz.ch>
Diff between pcalg versions 2.5-0 dated 2017-07-12 and 2.6-0 dated 2018-06-04
pcalg-2.5-0/pcalg/R/sysdata.rda |only pcalg-2.5-0/pcalg/man/unifDAG.Rd |only pcalg-2.5-0/pcalg/tests/test_unifDAG.R |only pcalg-2.6-0/pcalg/DESCRIPTION | 34 - pcalg-2.6-0/pcalg/MD5 | 61 +- pcalg-2.6-0/pcalg/NAMESPACE | 14 pcalg-2.6-0/pcalg/R/AllClasses.R | 8 pcalg-2.6-0/pcalg/R/adjustment.R | 39 + pcalg-2.6-0/pcalg/R/agesFuns.R |only pcalg-2.6-0/pcalg/R/gacFuns.R | 81 +-- pcalg-2.6-0/pcalg/R/genRandDAG.R | 592 ++++++++++++------------- pcalg-2.6-0/pcalg/R/jointIda.R | 2 pcalg-2.6-0/pcalg/build/vignette.rds |binary pcalg-2.6-0/pcalg/inst/doc/pcalgDoc.R | 114 +--- pcalg-2.6-0/pcalg/inst/doc/pcalgDoc.Rnw | 38 - pcalg-2.6-0/pcalg/inst/doc/pcalgDoc.pdf |binary pcalg-2.6-0/pcalg/inst/doc/vignette2018.R |only pcalg-2.6-0/pcalg/inst/doc/vignette2018.Rnw |only pcalg-2.6-0/pcalg/inst/doc/vignette2018.pdf |only pcalg-2.6-0/pcalg/man/adjustment.Rd | 2 pcalg-2.6-0/pcalg/man/ages.Rd |only pcalg-2.6-0/pcalg/man/gac.Rd | 3 pcalg-2.6-0/pcalg/man/gmG.Rd | 2 pcalg-2.6-0/pcalg/man/randDAG.Rd | 2 pcalg-2.6-0/pcalg/src/Makevars | 3 pcalg-2.6-0/pcalg/src/Makevars.win | 2 pcalg-2.6-0/pcalg/tests/test_adjustment.R | 124 +++++ pcalg-2.6-0/pcalg/tests/test_ages.R |only pcalg-2.6-0/pcalg/tests/test_fci.R | 4 pcalg-2.6-0/pcalg/tests/test_fciPlus.R | 6 pcalg-2.6-0/pcalg/tests/test_gSquareBin.R | 12 pcalg-2.6-0/pcalg/tests/test_pc.R | 3 pcalg-2.6-0/pcalg/tests/test_pcalg2dagitty.R | 5 pcalg-2.6-0/pcalg/tests/test_rfci.R | 5 pcalg-2.6-0/pcalg/vignettes/Mybibliography.bib |only pcalg-2.6-0/pcalg/vignettes/pcalgDoc.Rnw | 38 - pcalg-2.6-0/pcalg/vignettes/vignette2018.Rnw |only 37 files changed, 671 insertions(+), 523 deletions(-)
Title: Nonparametric Kernel Smoothing Methods for Mixed Data Types
Description: Nonparametric (and semiparametric) kernel methods that seamlessly handle a mix of continuous, unordered, and ordered factor data types. We would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC, <http://www.nserc-crsng.gc.ca>), the Social Sciences and Humanities Research Council of Canada (SSHRC, <http://www.sshrc-crsh.gc.ca>), and the Shared Hierarchical Academic Research Computing Network (SHARCNET, <http://www.sharcnet.ca>).
Author: Jeffrey S. Racine [aut, cre],
Tristen Hayfield [aut]
Maintainer: Jeffrey S. Racine <racinej@mcmaster.ca>
Diff between np versions 0.60-7 dated 2018-05-01 and 0.60-8 dated 2018-06-04
CHANGELOG | 4 ++++ DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- R/np.condensity.bw.R | 6 ++++++ R/np.condistribution.bw.R | 6 ++++++ R/zzz.R | 2 +- inst/doc/entropy_np.pdf |binary inst/doc/np.pdf |binary inst/doc/np_faq.Rnw | 10 +++++++++- inst/doc/np_faq.pdf |binary vignettes/np_faq.Rnw | 10 +++++++++- 11 files changed, 49 insertions(+), 17 deletions(-)
Title: Finite Mixture Distribution Models
Description: Fit finite mixture distribution models to grouped data and conditional data by maximum likelihood using a combination of a Newton-type algorithm and the EM algorithm.
Author: Peter Macdonald <pdmmac@mcmaster.ca>, with contributions from Juan Du <duduyy@hotmail.com>
Maintainer: Peter Macdonald <pdmmac@mcmaster.ca>
Diff between mixdist versions 0.5-4 dated 2011-10-23 and 0.5-5 dated 2018-06-04
DESCRIPTION | 22 ++++++++++------------ MD5 | 9 +++++---- NAMESPACE |only R/anova.mix.R | 2 +- man/mix.Rd | 6 ++++-- man/plot.mix.Rd | 6 ++++-- 6 files changed, 24 insertions(+), 21 deletions(-)
Title: Bootstrapped Response and Correlation Functions
Description: Bootstrapped correlation and response functions are widely used in dendrochronology to calibrate tree-ring proxy data against multiple instrumental time series of climatic variables. With this package, we provide functionality similar to DENDROCLIM2002 (Biondi and Waikul (2004) <10.1016/j.cageo.2003.11.004>). A full description with examples is given in Zang and Biondi (2013) <10.1016/j.dendro.2012.08.001>.
Author: Christian Zang
Maintainer: Christian Zang <christian.zang@wzw.tum.de>
Diff between bootRes versions 1.2.3 dated 2012-11-27 and 1.2.4 dated 2018-06-04
bootRes-1.2.3/bootRes/man/bootRes-package.Rd |only bootRes-1.2.4/bootRes/DESCRIPTION | 15 ++++++++------- bootRes-1.2.4/bootRes/MD5 | 14 +++++++------- bootRes-1.2.4/bootRes/NAMESPACE | 8 ++++++-- bootRes-1.2.4/bootRes/R/dcplot.R | 4 ++-- bootRes-1.2.4/bootRes/README.md |only bootRes-1.2.4/bootRes/man/dcc.Rd | 2 +- bootRes-1.2.4/bootRes/man/dcplot.Rd | 2 +- bootRes-1.2.4/bootRes/man/mdcc.Rd | 22 ++++++++++++++++------ 9 files changed, 41 insertions(+), 26 deletions(-)
Title: SAGA Geoprocessing and Terrain Analysis
Description: Provides access to geocomputing and terrain analysis functions
of the geographical information system (GIS) 'SAGA' (System for Automated
Geoscientific Analyses) from within R by running the command line version of
SAGA. This package furthermore provides several R functions for handling ASCII
grids, including a flexible framework for applying local functions (including
predict methods of fitted models) and focal functions to multiple grids. SAGA
GIS is available under GPLv2 / LGPLv2 licence from
<http://sourceforge.net/projects/saga-gis/>.
Author: Alexander Brenning [aut, cre] (<https://orcid.org/0000-0001-6640-679X>),
Donovan Bangs [aut],
Marc Becker [aut],
Patrick Schratz [ctb] (<https://orcid.org/0000-0003-0748-6624>),
Fabian Polakowski [ctb]
Maintainer: Alexander Brenning <alexander.brenning@uni-jena.de>
Diff between RSAGA versions 1.1.0 dated 2018-05-17 and 1.1.1 dated 2018-06-04
DESCRIPTION | 10 LICENSE | 678 +-- MD5 | 141 NAMESPACE | 186 - R/RSAGA-core.R | 2446 ++++++------- R/RSAGA-modules.R | 5982 ++++++++++++++++----------------- R/RSAGA-package.R | 116 R/RSAGA-utils.R | 130 R/gridtools.R | 4200 +++++++++++------------ R/landslides.R | 158 build/vignette.rds |binary inst/doc/RSAGA.R | 242 - inst/doc/RSAGA.Rmd | 550 +-- inst/doc/RSAGA.html | 768 +--- man/RSAGA-package.Rd | 126 man/centervalue.Rd | 50 man/create.variable.name.Rd | 48 man/focal.function.Rd | 254 - man/grid.predict.Rd | 158 man/grid.to.xyz.Rd | 68 man/landslides.Rd | 176 man/match.arg.ext.Rd | 126 man/multi.focal.function.Rd | 292 - man/pick.from.points.Rd | 340 - man/read.ascii.grid.Rd | 208 - man/relative.position.Rd | 90 man/resid.median.Rd | 84 man/rsaga.add.grid.values.to.points.Rd | 76 man/rsaga.close.gaps.Rd | 110 man/rsaga.contour.Rd | 80 man/rsaga.copy.sgrd.Rd | 50 man/rsaga.env.Rd | 188 - man/rsaga.esri.to.sgrd.Rd | 76 man/rsaga.esri.wrapper.Rd | 136 man/rsaga.fill.sinks.Rd | 118 man/rsaga.filter.gauss.Rd | 72 man/rsaga.filter.simple.Rd | 82 man/rsaga.geoprocessor.Rd | 186 - man/rsaga.get.modules.Rd | 182 - man/rsaga.get.modules.path.Rd | 40 man/rsaga.get.usage.Rd | 90 man/rsaga.get.version.Rd | 80 man/rsaga.grid.calculus.Rd | 172 man/rsaga.grid.to.points.Rd | 110 man/rsaga.hillshade.Rd | 98 man/rsaga.html.help.Rd | 78 man/rsaga.import.gdal.Rd | 516 +- man/rsaga.insolation.Rd | 166 man/rsaga.intersect.polygons.Rd | 166 man/rsaga.inverse.distance.Rd | 138 man/rsaga.lib.prefix.Rd | 70 man/rsaga.local.morphometry.Rd | 164 man/rsaga.parallel.processing.Rd | 212 - man/rsaga.pisr.Rd | 242 - man/rsaga.pisr2.Rd | 216 - man/rsaga.set.env.Rd | 54 man/rsaga.sgrd.to.esri.Rd | 124 man/rsaga.sink.removal.Rd | 84 man/rsaga.sink.route.Rd | 80 man/rsaga.slope.asp.curv.Rd | 274 - man/rsaga.solar.radiation.Rd | 160 man/rsaga.target.Rd | 120 man/rsaga.topdown.processing.Rd | 236 - man/rsaga.union.polygons.Rd | 164 man/rsaga.wetness.index.Rd | 138 man/set.file.extension.Rd | 74 man/wind.shelter.Rd | 140 tests/testthat.R | 8 tests/testthat/test-core.R | 28 tests/testthat/test-modules.R | 358 - vignettes/RSAGA.Rmd | 550 +-- vignettes/Thumbs.db |only 72 files changed, 11962 insertions(+), 12171 deletions(-)
Title: Detect Marine Heat Waves and Marine Cold Spells
Description: Given a time series of daily temperatures, the package provides tools
to detect extreme thermal events, including marine heat waves, and to
calculate the exceedances above or below specified threshold values.
It outputs the properties of all detected events and exceedances.
Author: Albertus J. Smit [aut, cre] (R implementation.),
Eric C. J. Oliver [aut] (The brain behind the Python implementation.),
Robert W. Schlegel [ctb] (Graphical and data summaries.)
Maintainer: Albertus J. Smit <albertus.smit@gmail.com>
Diff between RmarineHeatWaves versions 0.16.1 dated 2018-02-28 and 0.17.0 dated 2018-06-04
DESCRIPTION | 8 MD5 | 55 +-- NAMESPACE | 2 NEWS.md | 29 +- R/RmarineHeatWaves.R | 56 +-- R/blockAverage.R | 66 ++-- R/geom_flame.R | 3 R/geom_lolli.R | 3 R/graphFunctions.R | 39 +- R/zzz.R |only README.md | 123 ++++++-- build/vignette.rds |binary inst/doc/gridded-event-detection.html | 486 ++++++++++++++++++++++++---------- man/block_average.Rd | 15 - man/detect.Rd | 48 +-- man/event_line.Rd | 9 man/geom_flame.Rd | 3 man/geom_lolli.Rd | 3 man/lolli_plot.Rd | 3 tools/fig-example1-1.png |binary tools/fig-example2-1.png |binary tools/fig-example3-1.png |binary tools/fig-example3-2.png |binary tools/fig-example4-1.png |binary tools/fig-example5-1.png |binary tools/fig-example6-1.png |binary tools/fig-example6-2.png |binary tools/fig-example7-1.png |binary tools/fig-example7-2.png |binary 29 files changed, 625 insertions(+), 326 deletions(-)
More information about RmarineHeatWaves at CRAN
Permanent link
Title: Nonlinear and Penalized Quantile Regression Coefficients
Modeling
Description: Nonlinear and Penalized parametric modeling of quantile regression coefficient functions. Frumento P and Bottai M (2016) <doi:10.1111/biom.12410>.
Author: Gianluca Sottile [aut, cre]
Maintainer: Gianluca Sottile <gianluca.sottile@unipa.it>
Diff between qrcmNP versions 0.1.0 dated 2017-09-22 and 0.1.2 dated 2018-06-04
DESCRIPTION | 6 MD5 | 18 +- R/qrcmNL.R | 15 +- R/qrcmPen.R | 313 +++++++++++++++++++++++++++++++++++--------------- man/gof.piqr.Rd | 15 +- man/piqr.Rd | 30 +++- man/plot.piqr.Rd | 2 man/predict.piqr.Rd | 2 man/qrcmNP-package.Rd | 6 man/summary.piqr.Rd | 2 10 files changed, 283 insertions(+), 126 deletions(-)
Title: Pharmacokinetics in R
Description: Conduct a noncompartmental analysis as closely as possible to the most widely used commercial software for pharmacokinetic analysis, i.e. 'Phoenix(R) WinNonlin(R)' <https://www.certara.com/software/pkpd-modeling-and-simulation/phoenix-winnonlin/>.
Some features are
1) CDISC SDTM terms
2) Automatic slope selection with the same criterion of WinNonlin(R)
3) Supporting both 'linear-up linear-down' and 'linear-up log-down' method
4) Interval(partial) AUCs with 'linear' or 'log' interpolation method
* Reference: Gabrielsson J, Weiner D. Pharmacokinetic and Pharmacodynamic Data Analysis - Concepts and Applications. 5th ed. 2016. (ISBN:9198299107).
Author: Kyun-Seop Bae [aut], Jee Eun Lee [aut]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between pkr versions 0.1.1 dated 2017-07-10 and 0.1.2 dated 2018-06-04
pkr-0.1.1/pkr/R/unit.R |only pkr-0.1.1/pkr/man/unit.Rd |only pkr-0.1.2/pkr/DESCRIPTION | 10 - pkr-0.1.2/pkr/MD5 | 84 ++++++++----- pkr-0.1.2/pkr/NAMESPACE | 4 pkr-0.1.2/pkr/R/AUC.R | 33 +++-- pkr-0.1.2/pkr/R/BasicUtil.R | 99 ++-------------- pkr-0.1.2/pkr/R/BestSlope.R | 68 ++++++++--- pkr-0.1.2/pkr/R/IndiNCA.R | 208 ---------------------------------- pkr-0.1.2/pkr/R/IntAUC.R | 43 ++++--- pkr-0.1.2/pkr/R/Interpol.R | 42 +++++- pkr-0.1.2/pkr/R/LinAUC.R | 21 ++- pkr-0.1.2/pkr/R/LogAUC.R | 19 ++- pkr-0.1.2/pkr/R/NCA.R | 4 pkr-0.1.2/pkr/R/NCA0.R | 2 pkr-0.1.2/pkr/R/Slope.R | 53 ++++++-- pkr-0.1.2/pkr/R/Subset.R |only pkr-0.1.2/pkr/R/UT.R |only pkr-0.1.2/pkr/R/Unit.R |only pkr-0.1.2/pkr/R/combXPT.R | 3 pkr-0.1.2/pkr/R/pdfNCA.R |only pkr-0.1.2/pkr/R/rNCA.R | 19 ++- pkr-0.1.2/pkr/R/readEX.R | 12 - pkr-0.1.2/pkr/R/readPC.R | 10 - pkr-0.1.2/pkr/R/rtfNCA.R |only pkr-0.1.2/pkr/R/sNCA.R |only pkr-0.1.2/pkr/R/tblNCA.R |only pkr-0.1.2/pkr/R/txtNCA.R |only pkr-0.1.2/pkr/inst/NEWS.Rd | 5 pkr-0.1.2/pkr/inst/doc/pkr-manual.pdf |binary pkr-0.1.2/pkr/man/AUC.Rd | 13 -- pkr-0.1.2/pkr/man/BasicUtil.Rd | 2 pkr-0.1.2/pkr/man/BestSlope.Rd | 11 - pkr-0.1.2/pkr/man/IndiNCA.Rd | 2 pkr-0.1.2/pkr/man/IntAUC.Rd | 9 - pkr-0.1.2/pkr/man/Interpol.Rd | 6 pkr-0.1.2/pkr/man/LinAUC.Rd | 4 pkr-0.1.2/pkr/man/LogAUC.Rd | 6 pkr-0.1.2/pkr/man/NCA.Rd | 2 pkr-0.1.2/pkr/man/NCA0.Rd | 2 pkr-0.1.2/pkr/man/Slope.Rd | 2 pkr-0.1.2/pkr/man/Subset.Rd |only pkr-0.1.2/pkr/man/UT.Rd |only pkr-0.1.2/pkr/man/Unit.Rd |only pkr-0.1.2/pkr/man/pdfNCA.Rd |only pkr-0.1.2/pkr/man/pkr-package.Rd | 29 +--- pkr-0.1.2/pkr/man/rNCA.Rd | 3 pkr-0.1.2/pkr/man/rtfNCA.Rd |only pkr-0.1.2/pkr/man/sNCA.Rd |only pkr-0.1.2/pkr/man/tblNCA.Rd |only pkr-0.1.2/pkr/man/txtNCA.Rd |only pkr-0.1.2/pkr/tests/Test.R | 42 ++++-- 52 files changed, 386 insertions(+), 486 deletions(-)
Title: One-Way Tests in Independent Groups Designs
Description: Performs one-way tests in independent groups designs, pairwise comparisons, graphical approaches, assesses variance homogeneity and normality of data in each group via tests and plots.
Author: Osman Dag [aut, cre], Anil Dolgun [aut], N. Meric Konar [aut]
Maintainer: Osman Dag <osman.dag@hacettepe.edu.tr>
Diff between onewaytests versions 1.6 dated 2018-01-30 and 1.7 dated 2018-06-04
DESCRIPTION | 10 +++++----- MD5 | 2 +- 2 files changed, 6 insertions(+), 6 deletions(-)
Title: Lag Penalized Weighted Correlation for Time Series Clustering
Description: Computes a time series distance measure for clustering based on weighted correlation and introduction of lags. The lags capture delayed responses in a time series dataset. The timepoints must be specified. T. Chandereng, A. Gitter (2018) <doi:10.1101/292615>.
Author: Thevaa Chandereng [cre, aut],
Anthony Gitter [aut]
Maintainer: Thevaa Chandereng <chandereng@wisc.edu>
Diff between LPWC versions 0.99.2 dated 2018-04-12 and 0.99.3 dated 2018-06-04
DESCRIPTION | 19 ++++--- MD5 | 22 ++++---- R/bestlag.R | 5 + R/comp_corr.R | 12 ++-- R/score.R | 2 README.md | 34 +++++++++++- inst/doc/LPWC.R | 63 ++++++++++++++++++++++- inst/doc/LPWC.Rmd | 98 ++++++++++++++++++++++++++++++++++-- inst/doc/LPWC.html | 142 ++++++++++++++++++++++++++++++++++++++++++++++++----- man/best.lag.Rd | 3 - man/comp.corr.Rd | 9 +-- vignettes/LPWC.Rmd | 98 ++++++++++++++++++++++++++++++++++-- 12 files changed, 447 insertions(+), 60 deletions(-)
Title: Statistical Toolbox for Radiometric Geochronology
Description: Plots U-Pb data on Wetherill and Tera-Wasserburg concordia diagrams. Calculates concordia and discordia ages. Performs linear regression of measurements with correlated errors using 'York', 'Titterington' and 'Ludwig' approaches. Generates Kernel Density Estimates (KDEs) and Cumulative Age Distributions (CADs). Produces Multidimensional Scaling (MDS) configurations and Shepard plots of multi-sample detrital datasets using the Kolmogorov-Smirnov distance as a dissimilarity measure. Calculates 40Ar/39Ar ages, isochrons, and age spectra. Computes weighted means accounting for overdispersion. Calculates U-Th-He (single grain and central) ages, logratio plots and ternary diagrams. Processes fission track data using the external detector method and LA-ICP-MS, calculates central ages and plots fission track and other data on radial (a.k.a. 'Galbraith') plots. Constructs total Pb-U, Pb-Pb, Re-Os, Sm-Nd, Lu-Hf, Rb-Sr and 230Th-U isochrons as well as 230Th-U evolution plots.
Author: Pieter Vermeesch [aut, cre]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotR versions 1.2 dated 2018-05-01 and 1.3 dated 2018-06-04
DESCRIPTION | 6 - MD5 | 24 ++--- R/agespectrum.R | 28 ++++-- R/commonPb.R | 29 ++++-- R/concordia.R | 2 R/fissiontracks.R | 2 R/isochron.R | 20 ++++ R/toolbox.R | 13 ++ R/weightedmean.R | 228 ++++++++++++++++++++++++++++++++++------------------ R/york.R | 2 man/agespectrum.Rd | 21 +++- man/isochron.Rd | 4 man/weightedmean.Rd | 99 +++++++++++++--------- 13 files changed, 313 insertions(+), 165 deletions(-)
Title: Fit a Penalized Constrained Continuation Ratio Model for
Predicting an Ordinal Response
Description: Penalized methods are useful for fitting over-parameterized models. This package includes functions for restructuring an ordinal
response dataset for fitting continuation ratio models for datasets where the number of covariates exceeds the sample size or when
there is collinearity among the covariates. The glmnet fitting algorithm is used to fit the continuation ratio model after data restructuring.
Author: Kellie J. Archer
Maintainer: Kellie J. Archer <archer.43@osu.edu>
Diff between glmnetcr versions 1.0.3 dated 2017-09-07 and 1.0.4 dated 2018-06-04
DESCRIPTION | 8 ++++---- MD5 | 15 ++++++++------- build/partial.rdb |only build/vignette.rds |binary data/diabetes.rda |binary inst/NEWS.Rd | 5 +++++ inst/doc/glmnetcr.pdf |binary man/glmnetcr-package.Rd | 15 +++++---------- vignettes/glmnetRefs.bib | 5 +++-- 9 files changed, 25 insertions(+), 23 deletions(-)
Title: Automated Vector Autoregression Models and Networks
Description: Automatically find the best vector autoregression
models and networks for a given time series data set. 'AutovarCore'
evaluates eight kinds of models: models with and without log
transforming the data, lag 1 and lag 2 models, and models with and
without weekday dummy variables. For each of these 8 model configurations,
'AutovarCore' evaluates all possible combinations for including
outlier dummies (at 2.5x the standard deviation of the residuals)
and retains the best model. Model evaluation includes the Eigenvalue
stability test and a configurable set of residual tests. These eight
models are further reduced to four models because 'AutovarCore'
determines whether adding weekday dummies improves the model fit.
Author: Ando Emerencia [aut, cre]
Maintainer: Ando Emerencia <ando.emerencia@gmail.com>
Diff between autovarCore versions 1.0-2 dated 2018-01-29 and 1.0-4 dated 2018-06-04
autovarCore-1.0-2/autovarCore/inst/help_files |only autovarCore-1.0-4/autovarCore/DESCRIPTION | 8 autovarCore-1.0-4/autovarCore/MD5 | 149 +++++----- autovarCore-1.0-4/autovarCore/NAMESPACE | 42 +- autovarCore-1.0-4/autovarCore/R/RcppExports.R | 3 autovarCore-1.0-4/autovarCore/R/apply_ln_transformation.r | 1 autovarCore-1.0-4/autovarCore/R/assess_joint_sktest.r | 8 autovarCore-1.0-4/autovarCore/R/assess_kurtosis.r | 2 autovarCore-1.0-4/autovarCore/R/assess_portmanteau.r | 2 autovarCore-1.0-4/autovarCore/R/assess_portmanteau_squared.r | 1 autovarCore-1.0-4/autovarCore/R/assess_skewness.r | 2 autovarCore-1.0-4/autovarCore/R/autovar.r | 6 autovarCore-1.0-4/autovarCore/R/compete.r | 1 autovarCore-1.0-4/autovarCore/R/day_dummies.r | 1 autovarCore-1.0-4/autovarCore/R/daypart_dummies.r | 1 autovarCore-1.0-4/autovarCore/R/explode_dummies.r | 1 autovarCore-1.0-4/autovarCore/R/impute_datamatrix.r | 2 autovarCore-1.0-4/autovarCore/R/invalid_mask.r | 1 autovarCore-1.0-4/autovarCore/R/model_is_stable.r | 2 autovarCore-1.0-4/autovarCore/R/model_score.r | 2 autovarCore-1.0-4/autovarCore/R/needs_trend.r | 2 autovarCore-1.0-4/autovarCore/R/print_correlation_matrix.r | 6 autovarCore-1.0-4/autovarCore/R/residual_outliers.r | 7 autovarCore-1.0-4/autovarCore/R/run_tests.r | 1 autovarCore-1.0-4/autovarCore/R/run_var.r | 3 autovarCore-1.0-4/autovarCore/R/select_valid_masks.r | 1 autovarCore-1.0-4/autovarCore/R/selected_columns.r | 1 autovarCore-1.0-4/autovarCore/R/trend_columns.r | 1 autovarCore-1.0-4/autovarCore/R/validate_params.r | 1 autovarCore-1.0-4/autovarCore/R/validate_raw_dataframe.r | 1 autovarCore-1.0-4/autovarCore/build |only autovarCore-1.0-4/autovarCore/inst/bash/check_code_conventions.sh | 2 autovarCore-1.0-4/autovarCore/inst/docs |only autovarCore-1.0-4/autovarCore/man/autovarCore-package.Rd | 66 +++- autovarCore-1.0-4/autovarCore/man/outliers_column.Rd |only autovarCore-1.0-4/autovarCore/man/significance_from_pearson_coef.Rd |only autovarCore-1.0-4/autovarCore/man/sktest_joint_p.Rd |only autovarCore-1.0-4/autovarCore/src/coefficients_of_kurtosis.cpp | 1 autovarCore-1.0-4/autovarCore/src/coefficients_of_skewness.cpp | 1 autovarCore-1.0-4/autovarCore/src/portmanteau_test_statistics.cpp | 1 40 files changed, 195 insertions(+), 135 deletions(-)
Title: Time Series Analysis and Computational Finance
Description: Time series analysis and computational finance.
Author: Adrian Trapletti [aut],
Kurt Hornik [aut, cre],
Blake LeBaron [ctb] (BDS test code)
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between tseries versions 0.10-44 dated 2018-04-15 and 0.10-45 dated 2018-06-04
ChangeLog | 48 +++--------------------------------------------- DESCRIPTION | 8 ++++---- MD5 | 4 ++-- 3 files changed, 9 insertions(+), 51 deletions(-)
Title: Compositional Data Analysis
Description: Regression, classification, contour plots, hypothesis testing and fitting of distributions for compositional data are some of the functions included. The standard textbook for such data is John Aitchison's (1986). "The statistical analysis of compositional data". Chapman & Hall.
Author: Michail Tsagris [aut, cre],
Giorgos Athineou [aut]
Maintainer: Michail Tsagris <mtsagris@yahoo.gr>
Diff between Compositional versions 3.0 dated 2018-05-24 and 3.1 dated 2018-06-04
DESCRIPTION | 8 +++--- MD5 | 49 ++++++++++++++++++++-------------------- R/a.mle.R | 2 - R/alfa.pcr.R | 52 ++++++++++++++++++++++++++++++------------- R/alfa.tune.R | 4 +-- R/alfaknn.tune.R | 6 +++- R/alfapcr.tune.R | 31 +++++++++++++++---------- R/alfarda.tune.R | 5 ++-- R/alfareg.tune.R | 8 +++--- R/alfaridge.tune.R | 8 ++++-- R/alpha.mle.R | 8 ++++-- R/comp.kerncontour.R | 2 - R/compknn.tune.R | 9 ++++--- R/diri.contour.R | 8 ++++-- R/glmpcr.tune.R | 11 ++++----- R/mixnorm.contour.R | 2 - R/multinompcr.tune.R |only R/norm.contour.R | 2 - R/pcr.R | 2 - R/pcr.tune.R | 42 +++++++++------------------------- R/ridge.tune.R | 2 - R/skewnorm.contour.R | 2 - man/Compositional-package.Rd | 4 +-- man/alfa.pcr.Rd | 8 ++++-- man/alfapcr.tune.Rd | 5 +++- man/glmpcr.tune.Rd | 30 ++++++++++++++---------- 26 files changed, 174 insertions(+), 136 deletions(-)
Title: Easily Play Notification Sounds on any Platform
Description: The main function of this package is beep(), with the purpose to
make it easy to play notification sounds on whatever platform you are on.
It is intended to be useful, for example, if you are running a long analysis
in the background and want to know when it is ready.
Author: Rasmus Bååth [aut, cre],
Amanda Dobbyn [ctb]
Maintainer: Rasmus Bååth <rasmus.baath@gmail.com>
Diff between beepr versions 1.2 dated 2015-06-13 and 1.3 dated 2018-06-04
DESCRIPTION | 19 +++++++++------ MD5 | 17 +++++++------ NAMESPACE | 4 ++- NEWS | 6 ++++ R/beepr-package.R | 7 +++-- R/beepr.R | 64 ++++++++++++++++++++++++++++++++++++++++++++++++--- README.md | 11 ++++++-- man/beep.Rd | 13 ++++------ man/beep_on_error.Rd |only man/beepr.Rd | 11 ++++---- 10 files changed, 115 insertions(+), 37 deletions(-)
Title: Spatial Early Warning Signals of Ecosystem Degradation
Description: Tools to compute and assess significance of early-warnings signals (EWS) of ecosystem degradation on raster data sets. EWS are metrics derived from the observed spatial structure of an ecosystem -- e.g. spatial autocorrelation -- that increase before an ecosystem undergoes a non-linear transition (Kefi et al. (2014) <doi:10.1371/journal.pone.0092097>).
Author: Alain Danet, Alexandre Genin, Vishwesha Guttal, Sonia Kefi,
Sabiha Majumder, Sumithra Sankaran, Florian Schneider
Maintainer: Alexandre Genin <alexandre.genin@univ-montp2.fr>
Diff between spatialwarnings versions 1.0 dated 2017-11-03 and 1.1 dated 2018-06-04
spatialwarnings-1.0/spatialwarnings/man/generic_spews.Rd |only spatialwarnings-1.0/spatialwarnings/man/patchdistr_spews.Rd |only spatialwarnings-1.0/spatialwarnings/man/patchdistr_spews_plot.Rd |only spatialwarnings-1.0/spatialwarnings/man/patchdistr_spews_predict.Rd |only spatialwarnings-1.0/spatialwarnings/man/spectral_spews.Rd |only spatialwarnings-1.1/spatialwarnings/DESCRIPTION | 19 - spatialwarnings-1.1/spatialwarnings/MD5 | 123 +++++----- spatialwarnings-1.1/spatialwarnings/NAMESPACE | 99 ++++---- spatialwarnings-1.1/spatialwarnings/NEWS | 25 +- spatialwarnings-1.1/spatialwarnings/R/RcppExports.R | 8 spatialwarnings-1.1/spatialwarnings/R/checks.R | 2 spatialwarnings-1.1/spatialwarnings/R/coarse_graining.R | 2 spatialwarnings-1.1/spatialwarnings/R/deprecation.R |only spatialwarnings-1.1/spatialwarnings/R/fitpsd.R | 18 - spatialwarnings-1.1/spatialwarnings/R/helpers.R | 8 spatialwarnings-1.1/spatialwarnings/R/imports.R | 15 - spatialwarnings-1.1/spatialwarnings/R/indicator_plrange.R | 4 spatialwarnings-1.1/spatialwarnings/R/indicator_psdtype.R | 4 spatialwarnings-1.1/spatialwarnings/R/indicator_sdr.R | 10 spatialwarnings-1.1/spatialwarnings/R/indictest.R | 6 spatialwarnings-1.1/spatialwarnings/R/label.R | 49 +++ spatialwarnings-1.1/spatialwarnings/R/null_model_helpers.R | 5 spatialwarnings-1.1/spatialwarnings/R/spatialwarnings-deprecated.R |only spatialwarnings-1.1/spatialwarnings/R/spatialwarnings.R | 6 spatialwarnings-1.1/spatialwarnings/R/task_custom_spews.R |only spatialwarnings-1.1/spatialwarnings/R/task_custom_spews_indictest.R |only spatialwarnings-1.1/spatialwarnings/R/task_generic_indic.R | 18 - spatialwarnings-1.1/spatialwarnings/R/task_generic_indic_indictest.R | 17 - spatialwarnings-1.1/spatialwarnings/R/task_generic_indic_indictest_methods.R | 16 - spatialwarnings-1.1/spatialwarnings/R/task_generic_indic_methods.R | 28 +- spatialwarnings-1.1/spatialwarnings/R/task_patch_indic.R | 66 +++-- spatialwarnings-1.1/spatialwarnings/R/task_patch_indic_methods.R | 66 ++--- spatialwarnings-1.1/spatialwarnings/R/task_spectral_indic.R | 18 - spatialwarnings-1.1/spatialwarnings/R/task_spectral_indic_indictest.R | 22 - spatialwarnings-1.1/spatialwarnings/R/task_spectral_indic_indictest_methods.R | 16 - spatialwarnings-1.1/spatialwarnings/R/task_spectral_indic_methods.R | 16 - spatialwarnings-1.1/spatialwarnings/R/task_spectral_indic_plot.R | 30 +- spatialwarnings-1.1/spatialwarnings/man/coarse_grain.Rd | 2 spatialwarnings-1.1/spatialwarnings/man/create_indicator.Rd |only spatialwarnings-1.1/spatialwarnings/man/generic_sews.Rd |only spatialwarnings-1.1/spatialwarnings/man/generic_spews-deprecated.Rd |only spatialwarnings-1.1/spatialwarnings/man/indicator_plrange.Rd | 4 spatialwarnings-1.1/spatialwarnings/man/indicator_psdtype.Rd | 4 spatialwarnings-1.1/spatialwarnings/man/indicator_sdr.Rd | 4 spatialwarnings-1.1/spatialwarnings/man/indictest.Rd | 6 spatialwarnings-1.1/spatialwarnings/man/patchdistr_sews.Rd |only spatialwarnings-1.1/spatialwarnings/man/patchdistr_sews_plot.Rd |only spatialwarnings-1.1/spatialwarnings/man/patchdistr_sews_predict.Rd |only spatialwarnings-1.1/spatialwarnings/man/patchdistr_spews-deprecated.Rd |only spatialwarnings-1.1/spatialwarnings/man/patchsizes.Rd | 21 + spatialwarnings-1.1/spatialwarnings/man/raw_moran.Rd | 2 spatialwarnings-1.1/spatialwarnings/man/rspectrum.Rd | 2 spatialwarnings-1.1/spatialwarnings/man/spatialwarnings-deprecated.Rd |only spatialwarnings-1.1/spatialwarnings/man/spatialwarnings.Rd | 6 spatialwarnings-1.1/spatialwarnings/man/spectral_sews.Rd |only spatialwarnings-1.1/spatialwarnings/man/spectral_spews-deprecated.Rd |only spatialwarnings-1.1/spatialwarnings/man/xmin_estim.Rd | 2 spatialwarnings-1.1/spatialwarnings/src/RcppExports.cpp | 9 spatialwarnings-1.1/spatialwarnings/src/coarse_graining.cpp | 31 +- spatialwarnings-1.1/spatialwarnings/src/moran_correlation.cpp | 2 spatialwarnings-1.1/spatialwarnings/src/null_computation.cpp | 5 spatialwarnings-1.1/spatialwarnings/src/rspectrum.cpp | 2 spatialwarnings-1.1/spatialwarnings/tests/testthat/test-coarse_graining.R | 8 spatialwarnings-1.1/spatialwarnings/tests/testthat/test-custom_indicator.R |only spatialwarnings-1.1/spatialwarnings/tests/testthat/test-deprecated.R |only spatialwarnings-1.1/spatialwarnings/tests/testthat/test-indicator_values-plosone.R | 8 spatialwarnings-1.1/spatialwarnings/tests/testthat/test-indicator_values.R | 53 +++- spatialwarnings-1.1/spatialwarnings/tests/testthat/test-label.R |only spatialwarnings-1.1/spatialwarnings/tests/testthat/test-psdfit.R | 43 +-- spatialwarnings-1.1/spatialwarnings/tests/testthat/test-spectrum.R | 2 spatialwarnings-1.1/spatialwarnings/tests/testthat/test-workflows.R | 116 ++++----- spatialwarnings-1.1/spatialwarnings/tests/testthat/test-xminest.R | 35 +- spatialwarnings-1.1/spatialwarnings/tools |only 73 files changed, 633 insertions(+), 450 deletions(-)
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Title: A Fast Implementation of Random Forests
Description: A fast implementation of Random Forests, particularly suited for high
dimensional data. Ensembles of classification, regression, survival and
probability prediction trees are supported. Data from genome-wide association
studies can be analyzed efficiently. In addition to data frames, datasets of
class 'gwaa.data' (R package 'GenABEL') and 'dgCMatrix' (R package 'Matrix')
can be directly analyzed.
Author: Marvin N. Wright [aut, cre], Stefan Wager [ctb], Philipp Probst [ctb]
Maintainer: Marvin N. Wright <cran@wrig.de>
Diff between ranger versions 0.10.0 dated 2018-05-29 and 0.10.1 dated 2018-06-04
DESCRIPTION | 6 +++--- MD5 | 24 ++++++++++++------------ NEWS | 3 +++ src/TreeClassification.cpp | 4 ++-- src/TreeProbability.cpp | 4 ++-- src/rangerCpp.cpp | 13 ++++++------- tests/testthat/test_classification.R | 8 ++++---- tests/testthat/test_classweights.R | 22 +++++++++++----------- tests/testthat/test_genabel.R | 6 +++--- tests/testthat/test_importance.R | 22 +++++++++++----------- tests/testthat/test_ranger.R | 2 +- tests/testthat/test_regression.R | 6 +++--- tests/testthat/test_survival.R | 9 ++++----- 13 files changed, 65 insertions(+), 64 deletions(-)
Title: Import, Manipulate and Explore the Results of an 'Antares'
Simulation
Description: Import, manipulate and explore results generated by 'Antares', a
powerful software developed by RTE (Réseau de Transport d’Électricité) to simulate and study electric power systems
(more information about 'Antares' here : <https://antares.rte-france.com>). You can see the results of several ANTARES studies here : <http://bpnumerique.rte-france.com/>.
Author: Jalal-Edine ZAWAM [aut, cre],
Francois Guillem [aut],
Benoit Thieurmel [aut],
Titouan Robert [aut],
RTE [cph]
Maintainer: Jalal-Edine ZAWAM <jalal-edine.zawam@rte-france.com>
Diff between antaresRead versions 2.1.1 dated 2018-05-02 and 2.1.2 dated 2018-06-04
DESCRIPTION | 8 - MD5 | 30 ++-- NEWS | 5 R/getLinks.R | 181 +++++++++++++-------------- R/readLayout.R | 6 inst/doc/antares.html | 4 inst/doc/antaresH5.html | 20 +- tests/testthat/helper_init.R | 17 ++ tests/testthat/test-.timeIdToDate.R | 2 tests/testthat/test-extractDataList.R | 1 tests/testthat/test-h5ReadAntares.R | 2 tests/testthat/test-h5_nodata.R | 2 tests/testthat/test-h5_readInputs.R | 2 tests/testthat/test-h5_setSimulationPathH5.R | 3 tests/testthat/test-h5_write.R | 9 + tests/testthat/test-setup.R | 10 - 16 files changed, 172 insertions(+), 130 deletions(-)